SNPEff terms by type | Total | Common SNPs with dbSNP | Common SNPs with ensembl | Common SNPs with broad | Common variants with Orlando et al.[[8]] | Common variants with Doan et al.[[11]] | Novel variants |
---|---|---|---|---|---|---|---|
SNPs | |||||||
Exon | 8056 | 679 | 678 | 693 | 4650 | 1974 | 2920 |
Non-synonymous coding | 43043 | 3014 | 3002 | 3026 | 25200 | 12759 | 15007 |
Non-synonymous start | 10 | 1 | 1 | 1 | 3 | 3 | 5 |
Start lost | 48 | 4 | 4 | 4 | 30 | 19 | 15 |
Stop gained | 383 | 16 | 16 | 16 | 185 | 81 | 182 |
Stop lost | 29 | 6 | 6 | 6 | 20 | 5 | 8 |
Synonymous coding | 52965 | 4367 | 4355 | 4368 | 34360 | 16144 | 15962 |
Synonymous start | 1 | 0 | 0 | 0 | 0 | 0 | 1 |
Synonymous stop | 27 | 0 | 0 | 0 | 15 | 11 | 7 |
Indels | |||||||
Codon change plus codon deletion | 133 | - | - | - | 31 | 0 | 102 |
Codon change plus codon insertion | 248 | - | - | - | 62 | 0 | 186 |
Codon deletion | 201 | - | - | - | 55 | 1 | 145 |
Codon insertion | 178 | - | - | - | 39 | 2 | 137 |
Exon | 828 | - | - | - | 284 | 26 | 518 |
Exon deleted | 4 | - | - | - | 0 | 0 | 4 |
Frameshift | 7360 | - | - | - | 1903 | 541 | 4916 |
Start lost | 7 | - | - | - | 2 | 0 | 5 |
Stop gained | 25 | - | - | - | 6 | 0 | 19 |